Views of Structural Representatives from Six Families in the Kinase-Like Superfamily Other Than the TPKs

Abstract

<p>Structures are shown in an open-face view, and using the same conventions as used for PKA in <a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.0010049#pcbi-0010049-g001" target="_blank">Figure 1</a>. ATP and metal ions are shown in mirror image where available in the structure. Similar to <a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.0010049#pcbi-0010049-g001" target="_blank">Figure 1</a>, secondary structural elements are colored according to their conservation status in the overall superfamily as follows: yellow, elements are part of the “universal core” seen in all kinases in the superfamily; orange, elements are present in more than two, but not all, of the kinases in the superfamily; red, elements shared between only two families; purple, elements seen only in this family, but inserted within in the portion of the chain forming the universal core; blue, elements seen only in this family, and connected to the N- or C-terminal ends of the universal core. Secondary structural elements are labeled according to the standard conventions for the individual structure. As in <a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.0010049#pcbi-0010049-g001" target="_blank">Figure 1</a>, the glycine-rich loop is rendered in green and the loop forming the linker region is rendered in red. For clarity, the conserved residues shown in <a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.0010049#pcbi-0010049-g001" target="_blank">Figure 1</a> are not rendered in these structures, though in most cases they are similar. Structures shown are as follows: (A) aminoglycoside phosphotransferase (APH(3′)-IIIa [<a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.0010049#pcbi-0010049-b24" target="_blank">24</a>]); (B) CK (CKA-2 [<a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.0010049#pcbi-0010049-b23" target="_blank">23</a>]); (C) ChaK [<a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.0010049#pcbi-0010049-b20" target="_blank">20</a>]; (D) PI3K [<a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.0010049#pcbi-0010049-b21" target="_blank">21</a>]; (E) AFK [<a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.0010049#pcbi-0010049-b22" target="_blank">22</a>]; and (F) PIPKIIβ [<a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.0010049#pcbi-0010049-b19" target="_blank">19</a>]. Molecular renderings in this figure were created with MOLSCRIPT [<a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.0010049#pcbi-0010049-b90" target="_blank">90</a>].</p